Using Lastz aligner

Question

[Diego]

Hi,

I am trying to align two genomes (700Mb) using Lastz. The problem is that although my command is running fine and I am getting an output file (--format=axt), the output file reaches 250 Mb and stops increasing despite the job having been running for 10 hrs. I wonder what is going on here and if I am doing something wrong. This si my command:

lastz ./genomes/target_masked_genome.fa.2bit[multiple] ./genomes/quiery_masked_genome.fa.2bit --format=axt > ./output.axt

Thanks in advance, Diego